{"id":"https://openalex.org/W4406238123","doi":"https://doi.org/10.1109/bibm62325.2024.10822673","title":"Improving drug-target interaction prediction by integrating a fragment method with transformer and bilinear attention network","display_name":"Improving drug-target interaction prediction by integrating a fragment method with transformer and bilinear attention network","publication_year":2024,"publication_date":"2024-12-03","ids":{"openalex":"https://openalex.org/W4406238123","doi":"https://doi.org/10.1109/bibm62325.2024.10822673"},"language":"en","primary_location":{"id":"doi:10.1109/bibm62325.2024.10822673","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822673","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100360474","display_name":"Qi Zhang","orcid":"https://orcid.org/0009-0008-7984-7453"},"institutions":[{"id":"https://openalex.org/I4210102412","display_name":"Yan'an University","ror":"https://ror.org/01dyr7034","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210102412"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Qi Zhang","raw_affiliation_strings":["Yan' an University,College of Mathematics and Computer Science,Yan' an,China"],"affiliations":[{"raw_affiliation_string":"Yan' an University,College of Mathematics and Computer Science,Yan' an,China","institution_ids":["https://openalex.org/I4210102412"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069610209","display_name":"Le Zuo","orcid":"https://orcid.org/0000-0001-7582-4248"},"institutions":[{"id":"https://openalex.org/I4210102412","display_name":"Yan'an University","ror":"https://ror.org/01dyr7034","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210102412"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Le Zuo","raw_affiliation_strings":["Yan' an University,College of Mathematics and Computer Science,Yan' an,China"],"affiliations":[{"raw_affiliation_string":"Yan' an University,College of Mathematics and Computer Science,Yan' an,China","institution_ids":["https://openalex.org/I4210102412"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001833417","display_name":"Wenfa Wang","orcid":null},"institutions":[{"id":"https://openalex.org/I4210102412","display_name":"Yan'an University","ror":"https://ror.org/01dyr7034","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210102412"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wenfa Wang","raw_affiliation_strings":["Yan' an University,College of Mathematics and Computer Science,Yan' an,China"],"affiliations":[{"raw_affiliation_string":"Yan' an University,College of Mathematics and Computer Science,Yan' an,China","institution_ids":["https://openalex.org/I4210102412"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100632268","display_name":"Lerong Ma","orcid":"https://orcid.org/0000-0002-0277-1138"},"institutions":[{"id":"https://openalex.org/I4210102412","display_name":"Yan'an University","ror":"https://ror.org/01dyr7034","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210102412"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lerong Ma","raw_affiliation_strings":["Yan' an University,College of Mathematics and Computer Science,Yan' an,China"],"affiliations":[{"raw_affiliation_string":"Yan' an University,College of Mathematics and Computer Science,Yan' an,China","institution_ids":["https://openalex.org/I4210102412"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100345321","display_name":"Jing Zhang","orcid":"https://orcid.org/0000-0001-6595-7661"},"institutions":[{"id":"https://openalex.org/I4210102412","display_name":"Yan'an University","ror":"https://ror.org/01dyr7034","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210102412"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jing Zhang","raw_affiliation_strings":["Medical College of Yan' an University, Yan' an University,Yan' an,China"],"affiliations":[{"raw_affiliation_string":"Medical College of Yan' an University, Yan' an University,Yan' an,China","institution_ids":["https://openalex.org/I4210102412"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5007729783","display_name":"Bisheng Xia","orcid":"https://orcid.org/0009-0007-0771-6510"},"institutions":[{"id":"https://openalex.org/I4210102412","display_name":"Yan'an University","ror":"https://ror.org/01dyr7034","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210102412"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Bisheng Xia","raw_affiliation_strings":["Yan' an University,College of Mathematics and Computer Science,Yan' an,China"],"affiliations":[{"raw_affiliation_string":"Yan' an University,College of Mathematics and Computer Science,Yan' an,China","institution_ids":["https://openalex.org/I4210102412"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5100360474"],"corresponding_institution_ids":["https://openalex.org/I4210102412"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.30269651,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"7179","last_page":"7181"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9986000061035156,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9986000061035156,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11948","display_name":"Machine Learning in Materials Science","score":0.9545000195503235,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/bilinear-interpolation","display_name":"Bilinear interpolation","score":0.762826144695282},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6619380116462708},{"id":"https://openalex.org/keywords/fragment","display_name":"Fragment (logic)","score":0.6264259815216064},{"id":"https://openalex.org/keywords/transformer","display_name":"Transformer","score":0.5823112726211548},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.403671532869339},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.37857869267463684},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.1759760081768036},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.16723337769508362},{"id":"https://openalex.org/keywords/voltage","display_name":"Voltage","score":0.14144346117973328},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.08721131086349487},{"id":"https://openalex.org/keywords/electrical-engineering","display_name":"Electrical engineering","score":0.08134520053863525}],"concepts":[{"id":"https://openalex.org/C205203396","wikidata":"https://www.wikidata.org/wiki/Q612143","display_name":"Bilinear interpolation","level":2,"score":0.762826144695282},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6619380116462708},{"id":"https://openalex.org/C2776235265","wikidata":"https://www.wikidata.org/wiki/Q18392052","display_name":"Fragment (logic)","level":2,"score":0.6264259815216064},{"id":"https://openalex.org/C66322947","wikidata":"https://www.wikidata.org/wiki/Q11658","display_name":"Transformer","level":3,"score":0.5823112726211548},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.403671532869339},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.37857869267463684},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.1759760081768036},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.16723337769508362},{"id":"https://openalex.org/C165801399","wikidata":"https://www.wikidata.org/wiki/Q25428","display_name":"Voltage","level":2,"score":0.14144346117973328},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.08721131086349487},{"id":"https://openalex.org/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.08134520053863525}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm62325.2024.10822673","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822673","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320337495","display_name":"Technology Development","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":15,"referenced_works":["https://openalex.org/W2148145769","https://openalex.org/W2860192827","https://openalex.org/W3000043291","https://openalex.org/W3012012790","https://openalex.org/W3018980093","https://openalex.org/W3028589594","https://openalex.org/W3045389776","https://openalex.org/W3095617312","https://openalex.org/W3096561213","https://openalex.org/W3133246485","https://openalex.org/W3134490799","https://openalex.org/W4323042515","https://openalex.org/W4323256897","https://openalex.org/W4386715538","https://openalex.org/W4387424194"],"related_works":["https://openalex.org/W1973480752","https://openalex.org/W2805502594","https://openalex.org/W3132641048","https://openalex.org/W4403688099","https://openalex.org/W2165589608","https://openalex.org/W4253208712","https://openalex.org/W31439402","https://openalex.org/W2217679042","https://openalex.org/W1603677234","https://openalex.org/W2525971763"],"abstract_inverted_index":{"Deep":[0],"learning-based":[1],"methods":[2,24,88],"have":[3],"made":[4],"significant":[5],"strides":[6],"in":[7,17],"identifying":[8],"drug-target":[9],"interactions":[10,135],"(DTIs),":[11],"which":[12],"is":[13],"a":[14,63,101,111,125],"critical":[15],"component":[16],"the":[18,39,49,105,117,132],"drug":[19,53,108,137],"discovery":[20],"process.":[21],"However,":[22],"these":[23],"tend":[25],"to":[26,37,73,89,103,115,129],"rely":[27],"on":[28,67,143],"global":[29],"features":[30,106,118],"among":[31],"drugs":[32,91],"and":[33,55,69,84,92,110,139],"proteins,":[34,93],"often":[35],"fail":[36],"capture":[38,131],"long-distance":[40],"dependencies":[41],"that":[42,148],"are":[43],"essential":[44],"for":[45],"modeling.":[46],"Thereby":[47],"overlooking":[48],"complex":[50],"interaction":[51],"between":[52,136],"fragments":[54,109,138],"amino":[56,140],"acids.":[57,141],"In":[58],"this":[59],"paper,":[60],"we":[61],"propose":[62],"fragment":[64,86,90],"method":[65,150],"based":[66],"transformer":[68,102],"bilinear":[70,126],"attention":[71,127],"network":[72,114,128],"predict":[74],"DTIs.":[75],"Specifically,":[76],"our":[77,149],"approach":[78],"begins":[79],"by":[80,155],"branch":[81],"chain":[82],"mining":[83,87],"category":[85],"thereby":[94],"obtaining":[95],"their":[96],"different":[97],"substructures.":[98],"Then":[99],"utilize":[100],"learn":[104,116],"of":[107,119],"convolutional":[112],"neural":[113],"protein":[120],"fragments,":[121],"respectively.":[122],"Combine":[123],"with":[124,158],"explicitly":[130],"local,":[133],"pairwise":[134],"Experiments":[142],"two":[144],"benchmark":[145],"datasets":[146],"demonstrate":[147],"achieves":[151],"significantly":[152],"improved":[153],"performance":[154],"comparing":[156],"it":[157],"six":[159],"state-of-the-art":[160],"baselines.":[161]},"counts_by_year":[],"updated_date":"2025-12-27T23:08:20.325037","created_date":"2025-10-10T00:00:00"}
